BWA Benchmark (SBC)

BWA Benchmark

Using BWA from https://github.com/smikkelsendk/bwa-for-arm/tree/master/bin (with NEON)

Dataset:

• Retrieve https://files.subsecret.dk/benchmark/GCF_000005845.2_ASM584v2_genomic.fna.gz
• Retrieve (normal size benchmark) https://files.subsecret.dk/benchmark/ecolireads.fastq.gz

• Run ./bwa index GCF_000005845.2_ASM584v2_genomic.fna.gz
• 1 thread benchmark
  • ./bwa aln GCF_000005845.2_ASM584v2_genomic.fna.gz ecolireads.fastq.gz > /dev/null
• 4 threads benchmark
  • ./bwa aln GCF_000005845.2_ASM584v2_genomic.fna.gz ecolireads.fastq.gz > /dev/null

Results (32 bit)

Device	Kernel	OS	1 thread walltime (sec.)	4 threads walltime (sec.)	MAX threads walltime (sec.)
ODROID-C2
ODROID-N2	4.9.185-44	Ubuntu 18.04.3 LTS	435	120	97
RPI-3	4.19.58-v7+	Raspbian (Buster)	852	249	249
RPI-4	4.19.58-v7l+	Raspbian (Buster)		130	130

Results (64 bit)

Device	Kernel	OS	1 thread walltime (sec.)	4 threads walltime (sec.)	MAX threads walltime (sec.)
ODROID-C2
ODROID-N2	4.9.185-44	Ubuntu 18.04.3 LTS